Strain identifier

BacDive ID: 13435

Type strain: Yes

Species: Saccharomonospora saliphila

Strain history: <- SK Tang, Yunnan Inst. Microbiol., China

NCBI tax ID(s): 882085 (strain), 369829 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

General

@ref: 12329

BacDive-ID: 13435

DSM-Number: 45087

keywords: genome sequence, 16S sequence, Bacteria, aerobe, spore-forming, mesophilic, Gram-positive

description: Saccharomonospora saliphila DSM 45087 is an aerobe, spore-forming, mesophilic bacterium that was isolated from saline alkaline soil.

NCBI tax id

NCBI tax idMatching level
369829species
882085strain

strain history

@refhistory
12329<- S.-K. Tang; YIM 90502
67770KCTC 19234 <-- W.-J. Li YIM 90502.
67771<- SK Tang, Yunnan Inst. Microbiol., China

doi: 10.13145/bacdive13435.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Pseudonocardiales
  • family: Pseudonocardiaceae
  • genus: Saccharomonospora
  • species: Saccharomonospora saliphila
  • full scientific name: Saccharomonospora saliphila Dastager et al. 2008

@ref: 12329

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Pseudonocardiaceae

genus: Saccharomonospora

species: Saccharomonospora saliphila

full scientific name: Saccharomonospora saliphila Dastager et al. 2008

type strain: yes

Morphology

cell morphology

@refgram stainmotilityconfidence
32409positive
67771positive
69480no92.47
69480positive100

pigmentation

  • @ref: 32409
  • production: yes

Culture and growth conditions

culture temp

@refgrowthtypetemperaturerange
19914positiveoptimum37mesophilic
32409positivegrowth28-40
32409positiveoptimum28mesophilic
67770positivegrowth28mesophilic
67771positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 67771
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
32409yes
69481yes100
69480yes90.834

halophily

  • @ref: 32409
  • salt: NaCl
  • growth: positive
  • tested relation: optimum
  • concentration: 10 %

observation

  • @ref: 67770
  • observation: quinones: MK-9(H4), MK-8(H4)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3240917057cellobiose+carbon source
3240928757fructose+carbon source
3240928260galactose+carbon source
3240917234glucose+carbon source
3240917306maltose+carbon source
3240916634raffinose+carbon source
3240930911sorbitol+carbon source
3240917992sucrose+carbon source
3240918222xylose+carbon source

metabolite production

  • @ref: 32409
  • Chebi-ID: 16136
  • metabolite: hydrogen sulfide
  • production: yes

enzymes

@refvalueactivityec
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382lipase (C 14)+
68382leucine arylamidase+3.4.11.1
68382valine arylamidase+
68382cystine arylamidase+3.4.11.3
68382trypsin+3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase+3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase+3.2.1.23
68382beta-glucuronidase+3.2.1.31
68382alpha-glucosidase+3.2.1.20
68382beta-glucosidase+3.2.1.21
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
19914++++++++-++-++++---

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
12329saline alkaline soilKarnataka Province, GulbargaIndiaINDAsia
67770Muddy soilGulbarga, Karnataka ProvinceIndiaINDAsia
67771From salina soilIndiaINDAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Soil
#Condition#Alkaline
#Condition#Saline

taxonmaps

  • @ref: 69479
  • File name: preview.99_6194.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_2949;97_3627;98_4591;99_6194&stattab=map
  • Last taxonomy: Saccharomonospora saliphila subclade
  • 16S sequence: DQ367416
  • Sequence Identity:
  • Total samples: 2673
  • soil counts: 445
  • aquatic counts: 182
  • animal counts: 1896
  • plant counts: 150

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
123291Risk group (German classification)
199141Risk group (German classification)

Sequence information

16S sequences

  • @ref: 12329
  • description: Saccharomonospora saliphila YIM 90502 16S ribosomal RNA gene, partial sequence
  • accession: DQ367416
  • length: 1529
  • database: ena
  • NCBI tax ID: 882085

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Saccharomonospora saliphila YIM 90502882085.3wgspatric882085
66792Saccharomonospora saliphila YIM 905022517093016draftimg882085
67770Saccharomonospora saliphila YIM 90502GCA_000383795scaffoldncbi882085

GC content

@refGC-contentmethod
1232971.8
6777071.8thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileno91.799no
flagellatedno97.232no
gram-positiveyes88.668yes
anaerobicno98.547yes
halophileyes83.445yes
spore-formingyes60.212no
thermophileno87.255yes
glucose-utilyes87.425no
aerobicyes90.467no
glucose-fermentno93.635no

External links

@ref: 12329

culture collection no.: DSM 45087, CCTCC AB 207003, KCTC 19234, YIM 90502, JCM 15627

literature

  • topic: Phylogeny
  • Pubmed-ID: 18319456
  • title: Saccharomonospora saliphila sp. nov., a halophilic actinomycete from an Indian soil.
  • authors: Syed DG, Tang SK, Cai M, Zhi XY, Agasar D, Lee JC, Kim CJ, Jiang CL, Xu LH, Li WJ
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.65449-0
  • year: 2008
  • mesh: Actinomycetales/*classification/genetics/isolation & purification/physiology, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Genes, rRNA, Genotype, India, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Sodium Chloride, *Soil Microbiology, Species Specificity
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
12329Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45087)https://www.dsmz.de/collection/catalogue/details/culture/DSM-45087
19914Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM45087.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
32409Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2863328776041
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
68382Automatically annotated from API zym
69479João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.https://microbeatlas.org/MicrobeAtlas 1.0 beta
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1